Initial sequencing and analysis of the human genome.
The results of an international collaboration to produce and make freely available a draft sequence of the human genome are reported and an initial analysis is presented, describing some of the insights that can be gleaned from the sequence.
The Reactome pathway knowledgebase
The Reactome Web site and analysis tool set have been completely redesigned to increase speed, flexibility and user friendliness and the data model has been extended to support annotation of disease processes due to infectious agents and to mutation.
ProteomeXchange provides globally co-ordinated proteomics data submission and dissemination
The PX submission tool simplifies the process of submitting data to PRIDE by automating the very labor-intensive and therefore time-heavy and expensive process of manually downloading and editing files.
2016 update of the PRIDE database and its related tools
The developments in PRIDE resources and related tools are summarized and a brief update on the resources under development 'PRIDE Cluster' and 'PRide Proteomes', which provide a complementary view and quality-scored information of the peptide and protein identification data available inPRIDE Archive are given.
Reactome: a database of reactions, pathways and biological processes
A new web site with improved tools for pathway browsing and data analysis is developed, and orthology-based inferences of pathways in non-human species are made, applying Ensembl Compara to identify orthologs of curated human proteins in each of 20 other species.
The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
All data manually curated by the MINT curators have been moved into the IntAct database at EMBL-EBI and are merged with the existing IntAct dataset.
Databases on transcriptional regulation: TRANSFAC, TRRD and COMPEL
The quantitative and qualitative changes of all three databases and connected programs are described.
The InterPro database, an integrated documentation resource for protein families, domains and functional sites
InterPro is an integrated documentation resource for protein families, domains and functional sites, which amalgamates the efforts of the PROSITE, PRINTS, Pfam and ProDom database projects.
Reactome knowledgebase of human biological pathways and processes
Improved orthology prediction methods allowing pathway inference for 22 species and through collaborations to create manually curated Reactome pathway datasets for species including Arabidopsis, Oryza sativa, Drosophila and Gallus gallus.
The Reactome Pathway Knowledgebase
To support the continued brisk growth in the size and complexity of Reactome, this work has implemented a graph database, improved performance of data analysis tools, and designed new data structures and strategies to boost diagram viewer performance.